SMED30035309
Overview
Neoblast Clusters
Zeng et. al., 2018▻ Overview▻ Sub-lethal Irradiated Surviving X1 and X2 Cell Population
Overview
Single cell RNA-seq of pluripotent neoblasts and its early progeniesWe isolated X1 neoblasts cells enriched in high piwi-1 expression (Neoblast Population), and profiled ∼7,614 individual cells via scRNA-seq. Unsupervised analyses uncovered 12 distinct classes from 7,088 high-quality cells. We designated these classes Nb1 to Nb12 and ordered them based on high (Nb1) to low (Nb12) piwi-1 expression levels. We further defined groups of genes that best classified the cells parsed into 12 distinct cell clusters to generate a scaled expression heat map of discriminative gene sets for each cluster. Expression of each cluster’s gene signatures was validated using multiplex fluorescence in situ hybridization (FISH) co-stained with piwi-1 and largely confirmed the cell clusters revealed by scRNA-seq.We also tested sub-lethal irradiation exposure. To profile rare pluripotent stem cells (PSCs) and avoid interference from immediate progenitor cells, we determined a time point after sub-lethal irradiation (7 DPI) with minimal piwi-1+ cells, followed by isolation and single-cell RNA-seq of 1,200 individual cells derived from X1 (Piwi-1 high) and X2 (Piwi-1 low) cell populations (Sub-lethal Irradiated Surviving X1 and X2 Cell Population)Explore this single cell expression dataset with our NB Cluster Shiny AppSub-lethal Irradiated Surviving X1 and X2 Cell Population
Embryonic Expression
Davies et. al., 2017
Hover the mouse over a column in the graph to view average RPKM values per sample. Embryonic Stages: Y: yolk. S2-S8: Stages 2-8. C4: asexual adult. SX: virgin, sexually mature adult. back to top Anatomical Expression
PAGE et. al., 2020SMED30035309 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 6
Alignments
SMED30035309 aligns in the following genomic locations:
Homology
BLAST of SMED30035309 vs. Planmine SMEST
Match: SMESG000016968.1 (SMESG000016968.1) HSP 1 Score: 792.341 bits (2045), Expect = 0.000e+0 Identity = 423/451 (93.79%), Postives = 432/451 (95.79%), Query Frame = 3 Query: 87 LESMEKYSKITYQIFKMANDIFKYRITDVILLESTGIYLENMRDREFLDKNKIIAFNKKFSKTQHLKMLERKEGHGYSFLVSFNIPLSHAEYEFYNNEDITLYELEIPKLFTGLDGIKCTNKHLLRKVIRREHISNAFKLPLAIADEEFLCEQLKSCYSNEKNIYSSFILIITKMAAPEFNLMVMDNLIDIKRDCNKSYLGFFEEKILSDLVKKIVNHLKHCKSSLTDETKEPSLLLTYQISRDVLNVGYKQKEYYERAIKNYSMSNLKRFKEKFEQILCXXXXXXXXXXXXXXXXXNIVCNTFTICGLFHASPRLASYIGDIFETIMKYLEILQPKSNLDMIASRISEVILYCLCNIAQGGKLSDRQGWRPILYKYYKECKYSDEIKLASAVSICLLLRNEESQRXXXXXXXXXXXXLNKKNCDINKSGRTDYLGFTLEEIEWALAMTSL 1439 +ESMEKYSKITYQIFKMANDIFKYRITDVILLESTGIYLENMRDREFLDKNKIIAFNKKFSKTQHLKMLERKEGHGYSFLVSFNIPLSHAEYEFYNNEDITLYELEIPKLFTGLDGIKCTNKHLLRKVIRREHISNAFKLPLAIADEEFLCEQLKSCYSNEKNIYSSFILIITKMAAP+FNLMVMDNLIDIKRDCNKSYLGFFEEKILSDLVKKIVNHLKHCKSSLTDE KEPSLLLTYQISRDV+NVGYKQKEYYERAIKNYSMSNLKRFKEKFEQIL EKLTILTKLEEKEETTLNIVCNTFTICG FHASP++A YI DIF TIMKYLEILQPKSNLDMI SRISEVILYCLCNIAQ GKLSDRQGW+PILY+YYKECKYSDEIKLASAVSICLLL N ESQREYKSEIEEIK YL +INKSGR D+LGFTLEEIE ALAM SL Sbjct: 1 MESMEKYSKITYQIFKMANDIFKYRITDVILLESTGIYLENMRDREFLDKNKIIAFNKKFSKTQHLKMLERKEGHGYSFLVSFNIPLSHAEYEFYNNEDITLYELEIPKLFTGLDGIKCTNKHLLRKVIRREHISNAFKLPLAIADEEFLCEQLKSCYSNEKNIYSSFILIITKMAAPQFNLMVMDNLIDIKRDCNKSYLGFFEEKILSDLVKKIVNHLKHCKSSLTDENKEPSLLLTYQISRDVINVGYKQKEYYERAIKNYSMSNLKRFKEKFEQILREKLTILTKLEEKEETTLNIVCNTFTICGQFHASPQMAPYISDIFATIMKYLEILQPKSNLDMITSRISEVILYCLCNIAQDGKLSDRQGWKPILYEYYKECKYSDEIKLASAVSICLLLGNGESQREYKSEIEEIKRYLTDIKYNINKSGRIDFLGFTLEEIEGALAMASL 451
BLAST of SMED30035309 vs. Planmine SMEST
Match: SMESG000016968.1 (SMESG000016968.1) HSP 1 Score: 786.949 bits (2031), Expect = 0.000e+0 Identity = 421/448 (93.97%), Postives = 429/448 (95.76%), Query Frame = 3 Query: 96 MEKYSKITYQIFKMANDIFKYRITDVILLESTGIYLENMRDREFLDKNKIIAFNKKFSKTQHLKMLERKEGHGYSFLVSFNIPLSHAEYEFYNNEDITLYELEIPKLFTGLDGIKCTNKHLLRKVIRREHISNAFKLPLAIADEEFLCEQLKSCYSNEKNIYSSFILIITKMAAPEFNLMVMDNLIDIKRDCNKSYLGFFEEKILSDLVKKIVNHLKHCKSSLTDETKEPSLLLTYQISRDVLNVGYKQKEYYERAIKNYSMSNLKRFKEKFEQILCXXXXXXXXXXXXXXXXXNIVCNTFTICGLFHASPRLASYIGDIFETIMKYLEILQPKSNLDMIASRISEVILYCLCNIAQGGKLSDRQGWRPILYKYYKECKYSDEIKLASAVSICLLLRNEESQRXXXXXXXXXXXXLNKKNCDINKSGRTDYLGFTLEEIEWALAMTSL 1439 MEKYSKITYQIFKMANDIFKYRITDVILLESTGIYLENMRDREFLDKNKIIAFNKKFSKTQHLKMLERKEGHGYSFLVSFNIPLSHAEYEFYNNEDITLYELEIPKLFTGLDGIKCTNKHLLRKVIRREHISNAFKLPLAIADEEFLCEQLKSCYSNEKNIYSSFILIITKMAAP+FNLMVMDNLIDIKRDCNKSYLGFFEEKILSDLVKKIVNHLKHCKSSLTDE KEPSLLLTYQISRDV+NVGYKQKEYYERAIKNYSMSNLKRFKEKFEQIL EKLTILTKLEEKEETTLNIVCNTFTICG FHASP++A YI DIF TIMKYLEILQPKSNLDMI SRISEVILYCLCNIAQ GKLSDRQGW+PILY+YYKECKYSDEIKLASAVSICLLL N ESQREYKSEIEEIK YL +INKSGR D+LGFTLEEIE ALAM SL Sbjct: 1 MEKYSKITYQIFKMANDIFKYRITDVILLESTGIYLENMRDREFLDKNKIIAFNKKFSKTQHLKMLERKEGHGYSFLVSFNIPLSHAEYEFYNNEDITLYELEIPKLFTGLDGIKCTNKHLLRKVIRREHISNAFKLPLAIADEEFLCEQLKSCYSNEKNIYSSFILIITKMAAPQFNLMVMDNLIDIKRDCNKSYLGFFEEKILSDLVKKIVNHLKHCKSSLTDENKEPSLLLTYQISRDVINVGYKQKEYYERAIKNYSMSNLKRFKEKFEQILREKLTILTKLEEKEETTLNIVCNTFTICGQFHASPQMAPYISDIFATIMKYLEILQPKSNLDMITSRISEVILYCLCNIAQDGKLSDRQGWKPILYEYYKECKYSDEIKLASAVSICLLLGNGESQREYKSEIEEIKRYLTDIKYNINKSGRIDFLGFTLEEIEGALAMASL 448
BLAST of SMED30035309 vs. Planmine SMEST
Match: SMESG000016970.1 (SMESG000016970.1) HSP 1 Score: 449.899 bits (1156), Expect = 1.939e-153 Identity = 271/362 (74.86%), Postives = 295/362 (81.49%), Query Frame = 3 Query: 369 YNNEDITLYELEIPKLFTGLDGIKCTNKHLLR--KVIRREHISNAFKLPLAIADEEFLCEQLKSCYSNEKN-----IYSSFILIITKMAAPEFNLMVMDNLIDIKRDCNKSYLGFFEEKILSDLVKKIVNHLKHCKSSLTDETKEPSLLLTYQISRDVLNVGYKQKEYYERAIKNYSMSNLKRFKEKFEQILCXXXXXXXXXXXXXXXXXNIVCNTFTICGLFHASPRLASYIGDIFETIMKYLEILQPKSNLDMIASRISEVILYCLCNIAQGGKLSDRQGWRPILYKYYKECKYSDEIKLASAVSICLLLRNEESQRXXXXXXXXXXXXLNKKNCDINKSGRTDYLGFTLEEIEWALAMT 1433 +N D I +LFT L+GIK TNKH R + I I NAFK+ + D++F E+L+S YSNE N Y+ FILI T MAAP ++M+++N +DIK N+SYLGF EE+ILS I NHL+HCKSSLTD KEPSLLLTYQISRDVLNVGYKQ EYYERAI +YSMSNL+R KEKFEQIL EKLTILTKLEEKEETTLNIVCNTFTICG FHASPRLASYIGDIF TIMKYLEILQPKSNLDMIASRISEVILYCLCNIAQGGK SDRQGWRPILYKYYKECKYSDEIK ASAVSICLLLRN ESQREYKSEIEEIKIYLN+K +INKSGRTDYLGFTLEEIE ALAM Sbjct: 229 FNITDFPSVASAIQELFTRLEGIKYTNKHGQRLCEAILW-VICNAFKMSVVEIDKKFWFEKLQSYYSNENNSDEINYYALFILINTGMAAPPLSMMLLNNFMDIKEKGNQSYLGFSEEEILSVKAIGITNHLEHCKSSLTDGNKEPSLLLTYQISRDVLNVGYKQNEYYERAINSYSMSNLERLKEKFEQILREKLTILTKLEEKEETTLNIVCNTFTICGQFHASPRLASYIGDIFATIMKYLEILQPKSNLDMIASRISEVILYCLCNIAQGGKSSDRQGWRPILYKYYKECKYSDEIKFASAVSICLLLRNGESQREYKSEIEEIKIYLNEKKYNINKSGRTDYLGFTLEEIEGALAMA 589
BLAST of SMED30035309 vs. Planmine SMEST
Match: SMESG000016970.1 (SMESG000016970.1) HSP 1 Score: 449.129 bits (1154), Expect = 3.140e-153 Identity = 271/362 (74.86%), Postives = 295/362 (81.49%), Query Frame = 3 Query: 369 YNNEDITLYELEIPKLFTGLDGIKCTNKHLLR--KVIRREHISNAFKLPLAIADEEFLCEQLKSCYSNEKN-----IYSSFILIITKMAAPEFNLMVMDNLIDIKRDCNKSYLGFFEEKILSDLVKKIVNHLKHCKSSLTDETKEPSLLLTYQISRDVLNVGYKQKEYYERAIKNYSMSNLKRFKEKFEQILCXXXXXXXXXXXXXXXXXNIVCNTFTICGLFHASPRLASYIGDIFETIMKYLEILQPKSNLDMIASRISEVILYCLCNIAQGGKLSDRQGWRPILYKYYKECKYSDEIKLASAVSICLLLRNEESQRXXXXXXXXXXXXLNKKNCDINKSGRTDYLGFTLEEIEWALAMT 1433 +N D I +LFT L+GIK TNKH R + I I NAFK+ + D++F E+L+S YSNE N Y+ FILI T MAAP ++M+++N +DIK N+SYLGF EE+ILS I NHL+HCKSSLTD KEPSLLLTYQISRDVLNVGYKQ EYYERAI +YSMSNL+R KEKFEQIL EKLTILTKLEEKEETTLNIVCNTFTICG FHASPRLASYIGDIF TIMKYLEILQPKSNLDMIASRISEVILYCLCNIAQGGK SDRQGWRPILYKYYKECKYSDEIK ASAVSICLLLRN ESQREYKSEIEEIKIYLN+K +INKSGRTDYLGFTLEEIE ALAM Sbjct: 224 FNITDFPSVASAIQELFTRLEGIKYTNKHGQRLCEAILW-VICNAFKMSVVEIDKKFWFEKLQSYYSNENNSDEINYYALFILINTGMAAPPLSMMLLNNFMDIKEKGNQSYLGFSEEEILSVKAIGITNHLEHCKSSLTDGNKEPSLLLTYQISRDVLNVGYKQNEYYERAINSYSMSNLERLKEKFEQILREKLTILTKLEEKEETTLNIVCNTFTICGQFHASPRLASYIGDIFATIMKYLEILQPKSNLDMIASRISEVILYCLCNIAQGGKSSDRQGWRPILYKYYKECKYSDEIKFASAVSICLLLRNGESQREYKSEIEEIKIYLNEKKYNINKSGRTDYLGFTLEEIEGALAMA 584 The following BLAST results are available for this feature:
BLAST of SMED30035309 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30035309 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30035309 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30035309 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30035309 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30035309 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30035309 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30035309 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30035309 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30035309 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30035309 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30035309 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30035309 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30035309 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 4
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30035309 ID=SMED30035309|Name=SMED30035309|organism=Schmidtea mediterranea sexual|type=transcript|length=1451bpback to top protein sequence of SMED30035309-orf-1 >SMED30035309-orf-1 ID=SMED30035309-orf-1|Name=SMED30035309-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=449bp MEKYSKITYQIFKMANDIFKYRITDVILLESTGIYLENMRDREFLDKNKIback to top Annotated Terms
The following terms have been associated with this transcript:
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
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